Ondrej Klempir DNAnexus Team
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Recent activity by Ondrej Klempir
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Hi @Jonathan Ziegler?, It would be best if you return this data to UKB as return data. Here, I would recommend to contact UKB access team to get more info about return data. https://biobank.ndph.ox...
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@Ben Busby? FYI, this is amazing.
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For this and similar problems, I usually use "dx find data --name "*.xyz" --brief" to get properly formatted file ids and later use this list of ids in a custom bash one-liner/script (json builder)...
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Hi {@005t000000Aqg0DAAR}?, here are my ideas: A) Of course, you may want to create a folder structure in the DNAnexus UKB RAP project and save the images there (dx upload your files back to parent ...
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For your processed image, which file format is it stored in? Do you extracted image derived phenotypes and have your image described by series of numbers? Or do you output image as an output of you...
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2) Depending on what "Pathogenic Variants" annotation means, in the Cohort Browser, there is a possibility to apply a geno filter: You can then specify Variant Effects (e.g. High) and Genes/Genomic...
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1) There is a recent thread showing the Hail functionality and how to analyze genomics data using Hail:https://community.dnanexus.com/s/question/0D5t0000043xrVhCAI/hail-tutorial-and-example-noteboo...
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My understanding is that you can experiment with all the QC parameters etc. and tune your GWAS accordingly. Also possibly validate hits when running several experiments with different settings. QC...
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Not sure if I can help you with this follow up question as I do not have any experience with requester-pays Google Cloud Platform buckets. It seems that gsutil should work for it: https://cloud.goo...
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@Akhil Pampana?, please create a new post, so other Community members can contribute and read your question. This seems to me as an unrelated question to the Title of this thread.
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